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See !232 (comment 121298).

As get_codons may return codons with gaps inside, testing for the codon length is not enough
we must first clean the codons by removing the common gaps.
However the codons must not be cleaned to early so that positions are properly counted.

See #2056

Make sure they are handled correctly

Otherwise it induces unvoluntary frameshifts.  Therefore the total number of
characters returned in both lists must be equal and must also be equal to the
number of characters in the original sequences.

See #2056

A whole border is just a test. To be modified.

See #2056

Now spanify_mutation just do some display and doesn't
compute anything (basic) anymore.

We use get_mutations to be able to know where the mutations are.

Fix #2056

Those two functions are useful to detect synonymous mutations.
We also have fallbacks in case we don't want to split the
sequence in codons.

See #2056

Display CDR3 in production

Closes #3330

See merge request !294

Merge branch 'doc/3175-documenter-le-processus-de-a-a-z-pour-deployer-sur-un-serveur-sous-docker' into 'dev'

Improve Docker and server documentation (server.org/md)

See merge request !285

Replays 2a263ddf.

For deploying images to a server that does not have access to internet
or hub.docker.com

Replays 9a6421a9.

This documentation come from doc/dev

We need to remove devel-mode and correct a typo (cdr3 field name is in lowercase)

For deploying images to a server that does not have access to internet
or hub.docker.com

Tags in clonedb

Closes #2933

See merge request !292

Feature cs/prevent double clicking links

See merge request !291

Feature a/3444 artifacts junit

Closes #3444

See merge request !289

js/clone.js: target='_blank' for in-app links

See merge request !290

also start ajax indicator

prevents the application from calling a link that has been clicked
within the last second.

This is to prevent spam to the server namely if the application is
sluggish, causing users to click links multiple times because it seems
that nothing is happening.

See #2894

Same than help/manual links.

Cľonedb with indexes depending on user

See merge request !266

See !289

See #3444.

See #3444.

The coverage must happen after tests (otherwise it's not very meaningful).

Corrects f80461d5